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ABSTRACT: Unlocking the genetic diversity and population structure of the newly introduced European HerItage Barley collecTion (ExHIBiT)

PROVIDER: PRJEB67728 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	363_Exhibit.vcf.csi	Other
	363_Exhibit.vcf.gz	Vcf

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Unlocking the genetic diversity and population structure of the newly introduced European HerItage Barley collecTion (ExHIBiT)

Project description:In the last century, breeding programs have traditionally favoured yield-related traits, grown under high-input conditions, resulting in a loss of genetic diversity and an increased susceptibility to stresses in crops. The European Heritage Barley collection (ExHIBiT) was assembled to explore the genetic diversity in European barley focusing on Northern European accessions. ExHIBiT consists of 363 spring-barley accessions, focusing on two-row type. The collection consists of landraces (~14%), old cultivars (~18%), elite cultivars (~66%) and accessions with unknown breeding history (~2%), with 70% of the collection from Northern Europe. Based on 50k iSelect single nucleotide polymorphism (SNP) array data, the population structure of the ExHIBiT collection was explored. Power analysis established a representative core collection of 230 genotypically and phenotypically diverse accessions. The effectiveness of this core collection for conducting statistical and association analysis was explored by undertaking genome-wide association studies (GWAS) for several phenotypic traits, such as flowering time.

2023-10-26 | PRJEB67728 | EVA

RNA-seq data from peduncle tissue of cultivated two-row European spring barley genotypes

Project description:In this project we developed a data resource based on a historical collection of 209 two-row European spring barley genotypes. The population is representative of pan-European breeding progress across the years from 1830 to 2014. The dataset comprises gene expression data generated by RNA-sequencing data of six different tissues across a range of developmental stages. This submission contains the peduncle tissue samples.

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RNA-seq data from crown tissue of cultivated two-row European spring barley genotypes

2023-08-21 | E-MTAB-13234 | biostudies-arrayexpress

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2023-08-22 | E-MTAB-13231 | biostudies-arrayexpress

Genome sequencing of 22 Pseudomonas isolates from the rhizosphere of the barley variety Chevallier and 20 Psuedomonas isolates from the rhizosphere of the barley variety Tipple.

Project description:Chevallier is a heritage english landrace of barley first planted in 1820 while Tipple is modern cultivar of barley released in 2004. Pseudomonas strains were isolated from the rhizospheres of the two varieties and 22 and 20 of the most phylogenetically distinct ones were sequenced to find out the difference in genotypes preferentially selected in the rhizospheres of the two cultivars.

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Genetic diversity in Staphylococcus aureus (European collection)

Project description:Genetic diversity in Staphylococcus aureus (European collection)

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Identification of the AVRa7,AVRa9, AVRa10 and AVRa22 effector genes from barley powdery mildew fungus (Bgh) association analysis between transcript polymorphisms and AVRa phenotypes from 27 Bgh isolates.

Project description:Disease resistance is mediated by specific recognition of pathogen avriulence effectors (AVR) by nucleotide-binding leucine-rich repeat (NLR) receptors. The barley (Hordeum vulgare) mildew locus A (mla) resistance gene homolog 1 (RGH1) encoded NLRs (MLAs) confer isolate-specific resistance to the widespread mildew fungus Blumeria graminis forma specialis hordei (Bgh). In barley, MLA has been subject to extensive functional diversification, resulting in allelic resistance specificities, each recognizing a cognate Bgh AVRa. The by genetic association isolated AVRa1 and AVRa13 effectors belong to the candidate secreted effector protein (CSEP) gene family (Lu et al., 2016). To unravel the complex mechanisms underlying MLA functional diversification in barley and wheat, isolation of numerous Bgh AVRa genes and recognition of their gene products by MLA is necessary. Our here deployed higher resolution genetic association approach identified the Bgh avirulence gene candidate loci AVRa7, AVRa9, AVRa22 and AVRa10 by associating of transcript polymorphisms and AVRa phenotypes from a collection of 27 Bgh isolates. We collected 10 Bgh isolates from a local Bgh population in Cologne in addition to our previous collection of 17 Bgh isolates (Lu et al., 2016).

2019-02-19 | GSE110266 | GEO

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